* installing to library '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages'
* installing *source* package 'aphid' ...
** package 'aphid' successfully unpacked and MD5 sums checked
** using staged installation
** libs
make[1]: Entering directory '/tmp/RtmpEjJGCA/R.INSTALL3a80e348b173e4/aphid/src'
clang++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=2   -fpic  -g -O3 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o
clang++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=2   -fpic  -g -O3 -Wall -pedantic -mtune=native -c ViterbiC.cpp -o ViterbiC.o
ViterbiC.cpp:217:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if(((j - i) >= windowspace[0]) & ((j - i) <= windowspace[1])){
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                     &&
ViterbiC.cpp:217:10: note: cast one or both operands to int to silence this warning
ViterbiC.cpp:528:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if(((j - i) >= windowspace[0]) & ((j - i) <= windowspace[1])){
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                     &&
ViterbiC.cpp:528:10: note: cast one or both operands to int to silence this warning
ViterbiC.cpp:814:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if(((j - i) >= windowspace[0]) & ((j - i) <= windowspace[1])){
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                     &&
ViterbiC.cpp:814:10: note: cast one or both operands to int to silence this warning
ViterbiC.cpp:1104:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if(((j - i) >= windowspace[0]) & ((j - i) <= windowspace[1])){
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                     &&
ViterbiC.cpp:1104:10: note: cast one or both operands to int to silence this warning
ViterbiC.cpp:1242:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if(((j - i) >= windowspace[0]) & ((j - i) <= windowspace[1])){
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                     &&
ViterbiC.cpp:1242:10: note: cast one or both operands to int to silence this warning
5 warnings generated.
clang++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=2   -fpic  -g -O3 -Wall -pedantic -mtune=native -c init.cpp -o init.o
clang++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=2   -fpic  -g -O3 -Wall -pedantic -mtune=native -c map.cpp -o map.o
clang++-14 -std=gnu++11 -I"/home/hornik/tmp/R.check/r-devel-clang/Work/build/include" -DNDEBUG  -I'/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=2   -fpic  -g -O3 -Wall -pedantic -mtune=native -c utils.cpp -o utils.o
utils.cpp:45:40: warning: use of bitwise '|' with boolean operands [-Wbitwise-instead-of-logical]
  for(int i = 0; i < x.ncol(); i++) if((x(0, i) == 0) | (x(0, i) == 1)) modules++;
                                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                                                      ||
utils.cpp:45:40: note: cast one or both operands to int to silence this warning
utils.cpp:59:10: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      if((x(i, j) == 0) & (x(i, k) == 0)) out(0, module) = out(0, module) + seqweights[i];
         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                        &&
utils.cpp:59:10: note: cast one or both operands to int to silence this warning
utils.cpp:60:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 0) & (x(i, k) == 1)) out(1, module) = out(1, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:60:15: note: cast one or both operands to int to silence this warning
utils.cpp:61:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 0) & (x(i, k) == 2)) out(2, module) = out(2, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:61:15: note: cast one or both operands to int to silence this warning
utils.cpp:62:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 1) & (x(i, k) == 0)) out(3, module) = out(3, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:62:15: note: cast one or both operands to int to silence this warning
utils.cpp:63:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 1) & (x(i, k) == 1)) out(4, module) = out(4, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:63:15: note: cast one or both operands to int to silence this warning
utils.cpp:64:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 1) & (x(i, k) == 2)) out(5, module) = out(5, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:64:15: note: cast one or both operands to int to silence this warning
utils.cpp:65:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 2) & (x(i, k) == 0)) out(6, module) = out(6, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:65:15: note: cast one or both operands to int to silence this warning
utils.cpp:66:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 2) & (x(i, k) == 1)) out(7, module) = out(7, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:66:15: note: cast one or both operands to int to silence this warning
utils.cpp:67:15: warning: use of bitwise '&' with boolean operands [-Wbitwise-instead-of-logical]
      else if((x(i, j) == 2) & (x(i, k) == 2)) out(8, module) = out(8, module) + seqweights[i];
              ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
                             &&
utils.cpp:67:15: note: cast one or both operands to int to silence this warning
10 warnings generated.
clang++-14 -std=gnu++11 -shared -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -Wl,-O1 -o aphid.so RcppExports.o ViterbiC.o init.o map.o utils.o -L/home/hornik/tmp/R.check/r-devel-clang/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpEjJGCA/R.INSTALL3a80e348b173e4/aphid/src'
make[1]: Entering directory '/tmp/RtmpEjJGCA/R.INSTALL3a80e348b173e4/aphid/src'
make[1]: Leaving directory '/tmp/RtmpEjJGCA/R.INSTALL3a80e348b173e4/aphid/src'
installing to /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/00LOCK-aphid/00new/aphid/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (aphid)